Detailed information of oriT

oriT

The information of the oriT region


oriTDB ID   107655
Name   oriT_MAE2-X|p1 in_silico
Organism   Rhizobium rosettiformans strain MAE2-X
Sequence Completeness      -
NCBI accession of oriT (coordinates [strand])   NZ_CP032406 (266182..266219 [-], 38 nt)
oriT length   38 nt
IRs (inverted repeats)      23..28, 33..38  (CGTCGC..GCGACG)
Location of nic site      _
Conserved sequence flanking the
  nic site    		  _
Note   Predicted by oriTfinder 2.0

  oriT sequence  


Download         Length: 38 nt

>oriT_MAE2-X|p1
GGATCCGAAGGGCGCAATTATACGTCGCTGACGCGACG

Visualization of oriT structure

  oriT secondary structure

Predicted by RNAfold.

Download structure file


Relaxase

ID   5145 GenBank   WP_203020911
Name   traA_D4A92_RS22825_MAE2-X|p1 insolico UniProt ID   _
Length   1134 a.a. PDB ID   
Note   Predicted by oriTfinder 2.0

  Relaxase protein sequence


Download         Length: 1134 a.a.        Molecular weight: 126525.25 Da        Isoelectric Point: 10.1379

>WP_203020911.1 Ti-type conjugative transfer relaxase TraA [Rhizobium rosettiformans]
MAVPHFSVSIVGRSSGRSAVMSAAYRHCARMDFEREARRIDYTRKRGLRHEEFVIPADAPDWLCKMIGDR
SVAGASEAFWNHVEIFEKRGDAQLAKDVTIALPVELSTAENIQLMREFVEALITSKGMVADWVYHDVPGN
PHVHLMTTLRPLTEGGFGAKKLPVLLPDGGPLRNDAGKIVYEVWAGGTEDFNALRDGWFSCLNRHLMLAG
LDLYVDGRSFKKQGIELQPTLHIGVGATAVDRKSKEVQARETVALPTGLPVPTSAHAPLSAPFKAPGVPA
HRRELERIALQEEVRAHNLRRIEENPRIVLDLVTREKSVFDERDIAKILHRYVDDAARFQGLMTRIIQHP
DILRLDQERIDFTSGMRRPARVTTRQMIRLEARMASRANWLSEKSAFDVGRARLEKALSHFPRLSDEQKA
AISHVTAASRIALVIGRAGAGKTTMMKAAREVWEAAGYQVVGAALAGKAAEGLEKEAGIASRTLSSWELR
WDRGRNLLDEKTIMVLDEAGMVSSKQMALLLEQATLRGAKLVLIGDPEQLQPIEAGAAFRAIADRIGYAE
LETIYRQYEPWMREASLDLAHGHVENAVSSYVKHGRVMGSETKAEAVRRLIADWERDYDPGCSGLILAHL
RRDVRLLNQLARQRLVERGFVEPGHSFKTEEGIRLFAAGDQIVFLKNDASLGVKNGLLAKVVTAGPGFVT
AEIGAGEDRRLVRIDERLYRNLDHGYATTIHKSQGATVERVKVLASLSLDRHLTYVAMTRHRQELHVYYG
IRSFSKAGGLGRVLSRKNTKETTLDYEENNFYRVALRFAEARGLHIINVAHMLVRARLEWTCRQKERLTE
LGSRLIAIAGRLRQKQLVIAPVQTPSDPIGPMVSGMTTFAKSIGQAVEEKLAVDPVLKRQWQEVLARFNK
VYRDPETAFRALQVDAMMKDTEAARLTLDRVAKAPESFGELKGRPGFLANARQKRDRELALANASALARN
LNRYLRARAEAEIGFMLDEHAIRQRASLEIPGLSPAAMETLSRLEVRLDRQQSSGGLDAPEIDGKVRSEL
ERFAEAVATRFGERTLLVLAAKNPDGEVFQKLTADMSPAQKREVQAAWMAMRTSQQLSAAERLTKGQRQV
EGLRKTQSKGLSLK

  Protein domains


Predicted by InterproScan.

AAA domain (AAA_30)

(414-599)

BID domain of Bartonella effector protein (Bep) (Bep_C_terminal)

(890-986)

MobA/MobL family (MobA_MobL)

(17-243)

Viral (Superfamily 1) RNA helicase (Viral_helicase1)

(724-768)


  Protein structure



No available structure.




T4CP

ID   5379 GenBank   WP_203020778
Name   t4cp2_D4A92_RS22420_MAE2-X|p1 insolico UniProt ID   _
Length   816 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 816 a.a.        Molecular weight: 91325.35 Da        Isoelectric Point: 6.6329

>WP_203020778.1 VirB4 family type IV secretion/conjugal transfer ATPase [Rhizobium rosettiformans]
MVALSMFRQRGPSFADLMPYAALVEDGTLLLKDGSLLAGWYFFGPDTESATPLERNRISHEINAIISKLG
SGWMLQVDSLRVPSVGYHERERSHFPDPVSRAIDEERRRHFKMKDRHFESRQTLVLTYKPTHRAGEGMSQ
FVFSTEISARTRPADRALAAFSNAIREIEQYLSATITLQRMRVHRVNEVLGLREARFDSLLQFVRFCISG
ENMPVRLPDVGMYLDCILTAQMEHGTTPKLDDRHIGVVAIDGFPSQSWPGILNALDQMPLSYRWSSRFIF
LDAEDARRRLEQKRRRWQQKVRPFLDQLFQTDGRSLDQDAATMVAETEHAIGQANSGLVAFGYYTSVIVL
FDDHSGRLLENAELVRRMIQAEGFGARIETLNATEAYLGSLPGNWYANVRDPLINTNNLADLLPLNSVWT
GDSTAPCPFYPSNAPALIQVASGSTPFHFNLHHEDVGHTLIFGPTGSGKSTLLALIAAQFRRYENAQIFA
FDKGMSLMPLTRAVGGDHHEIGAEADGRAVLSFCPLAELETDADRAFATEFVETLLVFQGVTVTPLHRNA
IAHQIALMAASPGRSLSDFVSGVQSREIKEGLTHYTVNGPMGHLMDAEKDTLSFQSFQCIELEALMTMGE
RNLVPVLLHLFRRIEKRLTGAPSLIILDEAWLMLGHPVFREKIREWLKVLRKANCAVILATQSISDAERS
GIVDVLVESCPTKICLANPAAETPSMASFYERLGFNHRQIEIIATARPKKDYYCATPKGRRLFEMALGPL
TLAFTGVSDAEQIRTIKTLCQAHGPDWPRHWLSLKGETDALSLLDD

  Protein domains


Predicted by InterproScan.

CagE, TrbE, VirB family, component of type IV transporter system (CagE_TrbE_VirB)

(193-400)

  Protein structure



No available structure.



ID   5380 GenBank   WP_203020133
Name   traG_D4A92_RS22840_MAE2-X|p1 insolico UniProt ID   _
Length   645 a.a. PDB ID   _
Note   Predicted by oriTfinder 2.0

  T4CP protein sequence


Download         Length: 645 a.a.        Molecular weight: 70152.34 Da        Isoelectric Point: 9.4359

>WP_203020133.1 Ti-type conjugative transfer system protein TraG [Rhizobium rosettiformans]
MTPTRIFIATAAAAMIGLCALILPLAISPWHLSLGGSDRTRIILEHSSAILPYAAAAASGLVILFAARGT
LSIKATGWGVAAGAILVLLFDVLAKSFRHFSSSGAEAFDASGVSQLDVATSIGPVLLALCAAFAMRVAIR
GNAAFPRREPKRIRGRRALHGDADWMSLAKASKLFGESGGIVIGECYRVDHDSTASLAFRTDNEATWGAG
GKSKLLCFDASFGSTHGIAFAGSGGFKTTSVTIPTAIKWKGTLVVLDPSNEVAPMVEEHRKRYDRDVFVL
NPKDPTIGFNALDWIGRHGASKEEDIAAVASWIMSDSSRASGHRDDFFRASALQLLTAVIADVCLSGHTE
KRNQNLRTVRANLSEPEPKLKARLERIHETSQSDFVKENVAAFVNMTPETFSGVYANAIKETHWLSYPNY
AALVSGSTFTTDALAKGKTDIFIALDLKTLEMHAGLARVMIGTFLNAIYSQDGAMPGRALFLLDEVARLG
FMRILETARDAGRKYGISLILLYQSIGQMRESFGGRDAASKWFESASWISFSAINDPETAEYISRRCGMT
TVEIDKISRSFQAKGTSRTRSTQLASRPLILPHEVLQMRADEQIVFTSGNPPLRCGRALWFRRFEMGACL
DQSRFGQAREHQNIR

  Protein domains


Predicted by InterproScan.

Type IV secretory system Conjugative DNA transfer (T4SS-DNA_transf)

(165-635)

  Protein structure



No available structure.




T4SS

T4SS were predicted by using oriTfinder2.

Region 1: 177624..187208

Locus tag Coordinates Strand Size (bp) Protein ID Product Description
D4A92_RS22385 (D4A92_22415) 172923..174137 - 1215 WP_203020766 plasmid replication protein RepC -
D4A92_RS22390 (D4A92_22420) 174301..175278 - 978 WP_203020768 plasmid partitioning protein RepB -
D4A92_RS22395 (D4A92_22425) 175353..176540 - 1188 WP_203020770 plasmid partitioning protein RepA -
D4A92_RS22400 (D4A92_22430) 176956..177627 + 672 WP_203020772 acyl-homoserine-lactone synthase -
D4A92_RS22405 (D4A92_22435) 177624..178574 + 951 WP_203020774 P-type conjugative transfer ATPase TrbB virB11
D4A92_RS22410 (D4A92_22440) 178601..178969 + 369 WP_246754165 TrbC/VirB2 family protein virB2
D4A92_RS22415 (D4A92_22445) 178969..179265 + 297 WP_203020905 conjugal transfer protein TrbD virB3
D4A92_RS22420 (D4A92_22450) 179280..181730 + 2451 WP_203020778 VirB4 family type IV secretion/conjugal transfer ATPase virb4
D4A92_RS22425 (D4A92_22455) 181765..182523 + 759 WP_246754156 P-type conjugative transfer protein TrbJ virB5
D4A92_RS22430 (D4A92_22460) 182559..183761 + 1203 WP_203020907 P-type conjugative transfer protein TrbL virB6
D4A92_RS22435 (D4A92_22465) 183761..184426 + 666 WP_203020782 conjugal transfer protein TrbF virB8
D4A92_RS22440 (D4A92_22470) 184599..185330 + 732 WP_246754157 P-type conjugative transfer protein TrbG virB9
D4A92_RS22445 (D4A92_22475) 185398..185874 + 477 WP_203020784 hypothetical protein -
D4A92_RS22450 (D4A92_22480) 185871..187208 + 1338 WP_203020786 IncP-type conjugal transfer protein TrbI virB10
D4A92_RS22455 (D4A92_22485) 187313..188029 - 717 WP_203020788 autoinducer binding domain-containing protein -
D4A92_RS22460 (D4A92_22490) 188324..189148 - 825 WP_203020790 response regulator transcription factor -
D4A92_RS22465 (D4A92_22495) 189364..190146 + 783 WP_203020793 response regulator transcription factor -
D4A92_RS22470 (D4A92_22500) 190143..191534 + 1392 WP_203020796 amidohydrolase family protein -

Host bacterium

ID   8090 GenBank   NZ_CP032406
Plasmid name   MAE2-X|p1 Incompatibility group   -
Plasmid size   510647 bp Coordinate of oriT [Strand]   266182..266219 [-]
Host baterium   Rhizobium rosettiformans strain MAE2-X

Cargo genes

Drug resistance gene   -
Virulence gene   adeG
Metal resistance gene   -
Degradation gene   dxnH
Symbiosis gene   nodM
Anti-CRISPR   AcrIIA7